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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACAACTCTCTGCCTCTTCTGCTTACATCATACAACAAGCTTCTCTCTCTGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttcatcttcctaaccacattatctgattgcccttcacacaagttttatcatcatctcataaatactctcatgttttactttttcag

Basic information

species Arabidopsis thaliana
transcript AT1G12900.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G12900.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA19G28240.1 (Glycine max), 5'ss of exon 1
-TTACAACTCTCTGCCTCTTCTGCTT-ACATCATACAACAAGCTTCTCTCTCTGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttcatcttcctaaccacattatctgattgcccttcacacaagttttatcatcatc-----tcat--aaatactctcatgttttactttttcag---------------------------------------------------------------------------
 ||||||  |||| | | | |||||| || |  | |   |      ||  |   | | | ||||||||||||||| ||||||| ||||||||| | |||||||||      ||   | || ||    | ||    ||  ||      ||| ||| || |  | |     ||||   ||   | |  | ||    ||| ||||                                                                           
CTTACAAGCCTCTAC-TATACTGCTTCACCTTCTGCTCTAGAAAATTCAGTGCTGAAAC-ATGGCTTCGGCTACTCTCTCTGTAGCCAAACCAGCCCTTCAGgttcaa---caagctacttacttattcattcacttttccacgtttcaactttcattaataacatgcatcattagaaagttgtgttattagcatttatcagtgccatgctgtgcaaaagctaaggtaactttttataatagttttttttttttctttcattccttggtttattcag

upper sequence: AT1G12900.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G04940.1 (Glycine max), 5'ss of exon 1
-TTACAACTCTCTGCCTCTTCTGCTTACATCATACAACAAGCTTCTCTCTCTGGTAGC-CATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttt--tgtttcatcttcctaaccacattatctgattgcccttcacacaagttttat-catcatctcataa--atactctca-tgttttactttttcag-----------------------------------------------------------------
 ||||||  |||| | ||| |||||| || | |              ||  ||||    |||||||||||||||| ||||||| ||||||||| | |||||||||     |   |       |  ||| ||  |   || |   |  ||  | |   || |||||||  | |    |||| | |   |||  |  |  ||                                                                  
CTTACAAGGCTCTAC-TCTACTGCTT-CACCTTCTGCTCTAGAAAATTCAGTGGTGATACATGGCTTCGGCTACTCTCTCTGTAGCCAAACCAGCCCTTCAGgttcaacatgctactcattcattcacttttccatgtttcaactttcattaataacatgcatcatcagaaagttgtactattagcatttagcagtgccatattgtgcaaaagttaaggtaactttttataatagtgttttttttttcattccttggtttattcag

upper sequence: AT1G12900.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv14s0068g00680.t01 (Vitis vinifera), 5'ss of exon 1
--TTACAACTCTCTGCCTCTTCTGCT-TACATCATACAACAAGCTTCTCTCTCTGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttt-----tgtttcatcttcctaaccacattatctgattgcccttcacacaagttttatcatcatctcataaatactctcatgttttacttt-ttcag
       | |  |   ||  | |||    | |  | | || |   |   ||| |   |   ||||| ||||||||| ||||||| |||||||||||||||||||||      || ||  |  || |      | | | |  ||  | ||         ||| |  |  |       | |   | ||  | |||||| |||||
GAAGGGGATTTCCCAACTGCTTTGCCACTCCTTTTGCTACTATACTGCTTCTTTCCAA---ATGGCCTCGGCTACTCTCTCTGTAGCCAAACCATCTCTTCAGgttcctgcatgcttactactcttcttactactctttttttatctttt-tgttctctttgtagtagtacttgtgacataatgatactctactttgttcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|116451131|gb|EG493723.1|EG493723
EST:     TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|116442534|gb|EG485126.1|EG485126
EST:     TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGTAACTCCTCTGCTCTTCCCTTTGCC
genomic: TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|124819028|gb|EH903894.1|EH903894
EST:     TGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: TGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|116473085|gb|EG515677.1|EG515677
EST:     TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|125246740|gb|EL260825.1|EL260825
EST:     TGGCCAAACCATCTCTTCTAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGC
genomic: TGGCCAAACCATCTCTTC-AGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGC
EST: gi|124896921|gb|EH973135.1|EH973135
EST:     CCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: CCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|124713086|gb|EH804488.1|EH804488
EST:     CATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: CATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|124717039|gb|EH808441.1|EH808441
EST:     CCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: CCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC